>creating p-loci data structure...done
 -> selfscore (ENSP00000334495) successfully validated...
 -> selfscore (ENSP00000372115) successfully validated...
 -> selfscore (ENSP00000348900) successfully validated...
 -> selfscore (ENSP00000322234) successfully validated...
 -> selfscore (ENSP00000371862) successfully validated...
 -> selfscore (ENSP00000371810) successfully validated...
 -> selfscore (ENSP00000371794) successfully validated...
 -> selfscore (ENSP00000371785) successfully validated...
 -> selfscore (ENSP00000371780) successfully validated...
 -> selfscore (ENSP00000316407) successfully validated...
 -> selfscore (ENSP00000371578) successfully validated...
 -> selfscore (ENSP00000371499) successfully validated...
 -> selfscore (ENSP00000371425) successfully validated...
 -> selfscore (ENSP00000371390) successfully validated...
 -> selfscore (ENSP00000320303) successfully validated...
>fetching global-besthit data for all queries against Gallus_gallus...>warning: tblastn/OLIG2_ENSG00000205927_5e5.protein.info.Gallus_gallus.blastresult contains no data (at least for query "ENSP00000334495"! (getBestBlastHit)
>warning: tblastn/OLIG2_ENSG00000205927_5e5.protein.info.Gallus_gallus.blastresult contains no data (at least for query "ENSP00000371780"! (getBestBlastHit)
>warning: tblastn/OLIG2_ENSG00000205927_5e5.protein.info.Gallus_gallus.blastresult contains no data (at least for query "ENSP00000316407"! (getBestBlastHit)
>warning: tblastn/OLIG2_ENSG00000205927_5e5.protein.info.Gallus_gallus.blastresult contains no data (at least for query "ENSP00000371425"! (getBestBlastHit)
done
>fetching EnsemblCompara-homologs for (GeneID=ENSG00000186842, targetOrg=Gallus_gallus)...none
>fetching EnsemblCompara-homologs for (GeneID=ENSG00000166984, targetOrg=Gallus_gallus)...none
>fetching EnsemblCompara-homologs for (GeneID=ENSG00000159079, targetOrg=Gallus_gallus)...ok
>fetching EnsemblCompara-homologs for (GeneID=ENSG00000159082, targetOrg=Gallus_gallus)...ok
>fetching EnsemblCompara-homologs for (GeneID=ENSG00000159086, targetOrg=Gallus_gallus)...ok
>fetching EnsemblCompara-homologs for (GeneID=ENSG00000205929, targetOrg=Gallus_gallus)...ok
>fetching EnsemblCompara-homologs for (GeneID=ENSG00000205927, targetOrg=Gallus_gallus)...ok
>fetching EnsemblCompara-homologs for (GeneID=ENSG00000184221, targetOrg=Gallus_gallus)...ok
>fetching EnsemblCompara-homologs for (GeneID=ENSG00000205921, targetOrg=Gallus_gallus)...none
>fetching EnsemblCompara-homologs for (GeneID=ENSG00000159110, targetOrg=Gallus_gallus)...ok
>fetching EnsemblCompara-homologs for (GeneID=ENSG00000159113, targetOrg=Gallus_gallus)...ok
>fetching EnsemblCompara-homologs for (GeneID=ENSG00000142166, targetOrg=Gallus_gallus)...ok
>fetching EnsemblCompara-homologs for (GeneID=ENSG00000159128, targetOrg=Gallus_gallus)...ok
>fetching EnsemblCompara-homologs for (GeneID=ENSG00000142188, targetOrg=Gallus_gallus)...ok
>fetching EnsemblCompara-homologs for (GeneID=ENSG00000177692, targetOrg=Gallus_gallus)...none
>chaining blast-hits together...done
>calculating gene order alignments...done
>chaining blast-hits together...done
>calculating gene order alignments...done
>chaining blast-hits together...done
>calculating gene order alignments...done
>chaining blast-hits together...done
>calculating gene order alignments...done
>chaining blast-hits together...done
>calculating gene order alignments...done
>chaining blast-hits together...done
>calculating gene order alignments...done
>chaining blast-hits together...done
>calculating gene order alignments...done
>chaining blast-hits together...done
>calculating gene order alignments...done
>chaining blast-hits together...done
>calculating gene order alignments...done
>chaining blast-hits together...done
>calculating gene order alignments...done
>fetching global-besthit data for all queries against Canis_familiaris...>warning: tblastn/OLIG2_ENSG00000205927_5e5.protein.info.Canis_familiaris.blastresult contains no data (at least for query "ENSP00000334495"! (getBestBlastHit)
>warning: tblastn/OLIG2_ENSG00000205927_5e5.protein.info.Canis_familiaris.blastresult contains no data (at least for query "ENSP00000371780"! (getBestBlastHit)
done
>fetching EnsemblCompara-homologs for (GeneID=ENSG00000186842, targetOrg=Canis_familiaris)...none
>fetching EnsemblCompara-homologs for (GeneID=ENSG00000166984, targetOrg=Canis_familiaris)...none
>fetching EnsemblCompara-homologs for (GeneID=ENSG00000159079, targetOrg=Canis_familiaris)...ok
>fetching EnsemblCompara-homologs for (GeneID=ENSG00000159082, targetOrg=Canis_familiaris)...ok
>fetching EnsemblCompara-homologs for (GeneID=ENSG00000159086, targetOrg=Canis_familiaris)...ok
>fetching EnsemblCompara-homologs for (GeneID=ENSG00000205929, targetOrg=Canis_familiaris)...ok
>fetching EnsemblCompara-homologs for (GeneID=ENSG00000205927, targetOrg=Canis_familiaris)...ok
>fetching EnsemblCompara-homologs for (GeneID=ENSG00000184221, targetOrg=Canis_familiaris)...ok
>fetching EnsemblCompara-homologs for (GeneID=ENSG00000205921, targetOrg=Canis_familiaris)...none
>fetching EnsemblCompara-homologs for (GeneID=ENSG00000159110, targetOrg=Canis_familiaris)...ok
>fetching EnsemblCompara-homologs for (GeneID=ENSG00000159113, targetOrg=Canis_familiaris)...ok
>fetching EnsemblCompara-homologs for (GeneID=ENSG00000142166, targetOrg=Canis_familiaris)...ok
>fetching EnsemblCompara-homologs for (GeneID=ENSG00000159128, targetOrg=Canis_familiaris)...ok
>fetching EnsemblCompara-homologs for (GeneID=ENSG00000142188, targetOrg=Canis_familiaris)...ok
>fetching EnsemblCompara-homologs for (GeneID=ENSG00000177692, targetOrg=Canis_familiaris)...ok
>chaining blast-hits together...done
>calculating gene order alignments...done
>chaining blast-hits together...done
>calculating gene order alignments...done
>chaining blast-hits together...done
>calculating gene order alignments...done
>chaining blast-hits together...done
>calculating gene order alignments...done
>chaining blast-hits together...done
>calculating gene order alignments...done
>chaining blast-hits together...done
>calculating gene order alignments...done
>chaining blast-hits together...done
>calculating gene order alignments...done
>chaining blast-hits together...done
>calculating gene order alignments...done
>chaining blast-hits together...done
>calculating gene order alignments...done
>chaining blast-hits together...done
>calculating gene order alignments...done
>fetching global-besthit data for all queries against Macaca_mulatta...>warning: tblastn/OLIG2_ENSG00000205927_5e5.protein.info.Macaca_mulatta.blastresult contains no data (at least for query "ENSP00000371780"! (getBestBlastHit)
done
>fetching EnsemblCompara-homologs for (GeneID=ENSG00000186842, targetOrg=Macaca_mulatta)...none
>fetching EnsemblCompara-homologs for (GeneID=ENSG00000166984, targetOrg=Macaca_mulatta)...ok
>fetching EnsemblCompara-homologs for (GeneID=ENSG00000159079, targetOrg=Macaca_mulatta)...ok
>fetching EnsemblCompara-homologs for (GeneID=ENSG00000159082, targetOrg=Macaca_mulatta)...ok
>fetching EnsemblCompara-homologs for (GeneID=ENSG00000159086, targetOrg=Macaca_mulatta)...ok
>fetching EnsemblCompara-homologs for (GeneID=ENSG00000205929, targetOrg=Macaca_mulatta)...ok
>fetching EnsemblCompara-homologs for (GeneID=ENSG00000205927, targetOrg=Macaca_mulatta)...ok
>fetching EnsemblCompara-homologs for (GeneID=ENSG00000184221, targetOrg=Macaca_mulatta)...ok
>fetching EnsemblCompara-homologs for (GeneID=ENSG00000205921, targetOrg=Macaca_mulatta)...none
>fetching EnsemblCompara-homologs for (GeneID=ENSG00000159110, targetOrg=Macaca_mulatta)...ok
>fetching EnsemblCompara-homologs for (GeneID=ENSG00000159113, targetOrg=Macaca_mulatta)...ok
>fetching EnsemblCompara-homologs for (GeneID=ENSG00000142166, targetOrg=Macaca_mulatta)...ok
>fetching EnsemblCompara-homologs for (GeneID=ENSG00000159128, targetOrg=Macaca_mulatta)...ok
>fetching EnsemblCompara-homologs for (GeneID=ENSG00000142188, targetOrg=Macaca_mulatta)...ok
>fetching EnsemblCompara-homologs for (GeneID=ENSG00000177692, targetOrg=Macaca_mulatta)...ok
>chaining blast-hits together...done
>calculating gene order alignments...done
>chaining blast-hits together...done
>calculating gene order alignments...done
>chaining blast-hits together...done
>calculating gene order alignments...done
>chaining blast-hits together...done
>calculating gene order alignments...done
>chaining blast-hits together...done
>calculating gene order alignments...done
>chaining blast-hits together...done
>calculating gene order alignments...done
>chaining blast-hits together...done
>calculating gene order alignments...done
>chaining blast-hits together...done
>calculating gene order alignments...done
>chaining blast-hits together...done
>calculating gene order alignments...done
>chaining blast-hits together...done
>calculating gene order alignments...done
>fetching global-besthit data for all queries against Gasterosteus_aculeatus...>warning: tblastn/OLIG2_ENSG00000205927_5e5.protein.info.Gasterosteus_aculeatus.blastresult contains no data (at least for query "ENSP00000334495"! (getBestBlastHit)
>warning: tblastn/OLIG2_ENSG00000205927_5e5.protein.info.Gasterosteus_aculeatus.blastresult contains no data (at least for query "ENSP00000372115"! (getBestBlastHit)
>warning: tblastn/OLIG2_ENSG00000205927_5e5.protein.info.Gasterosteus_aculeatus.blastresult contains no data (at least for query "ENSP00000371780"! (getBestBlastHit)
>warning: tblastn/OLIG2_ENSG00000205927_5e5.protein.info.Gasterosteus_aculeatus.blastresult contains no data (at least for query "ENSP00000316407"! (getBestBlastHit)
>warning: tblastn/OLIG2_ENSG00000205927_5e5.protein.info.Gasterosteus_aculeatus.blastresult contains no data (at least for query "ENSP00000371578"! (getBestBlastHit)
>warning: tblastn/OLIG2_ENSG00000205927_5e5.protein.info.Gasterosteus_aculeatus.blastresult contains no data (at least for query "ENSP00000371499"! (getBestBlastHit)
>warning: tblastn/OLIG2_ENSG00000205927_5e5.protein.info.Gasterosteus_aculeatus.blastresult contains no data (at least for query "ENSP00000371425"! (getBestBlastHit)
done
>fetching EnsemblCompara-homologs for (GeneID=ENSG00000186842, targetOrg=Gasterosteus_aculeatus)...none
>fetching EnsemblCompara-homologs for (GeneID=ENSG00000166984, targetOrg=Gasterosteus_aculeatus)...none
>fetching EnsemblCompara-homologs for (GeneID=ENSG00000159079, targetOrg=Gasterosteus_aculeatus)...ok
>fetching EnsemblCompara-homologs for (GeneID=ENSG00000159082, targetOrg=Gasterosteus_aculeatus)...ok
>fetching EnsemblCompara-homologs for (GeneID=ENSG00000159086, targetOrg=Gasterosteus_aculeatus)...ok
>fetching EnsemblCompara-homologs for (GeneID=ENSG00000205929, targetOrg=Gasterosteus_aculeatus)...ok
>fetching EnsemblCompara-homologs for (GeneID=ENSG00000205927, targetOrg=Gasterosteus_aculeatus)...ok
>fetching EnsemblCompara-homologs for (GeneID=ENSG00000184221, targetOrg=Gasterosteus_aculeatus)...ok
>fetching EnsemblCompara-homologs for (GeneID=ENSG00000205921, targetOrg=Gasterosteus_aculeatus)...none
>fetching EnsemblCompara-homologs for (GeneID=ENSG00000159110, targetOrg=Gasterosteus_aculeatus)...ok
>fetching EnsemblCompara-homologs for (GeneID=ENSG00000159113, targetOrg=Gasterosteus_aculeatus)...ok
>fetching EnsemblCompara-homologs for (GeneID=ENSG00000142166, targetOrg=Gasterosteus_aculeatus)...ok
>fetching EnsemblCompara-homologs for (GeneID=ENSG00000159128, targetOrg=Gasterosteus_aculeatus)...ok
>fetching EnsemblCompara-homologs for (GeneID=ENSG00000142188, targetOrg=Gasterosteus_aculeatus)...ok
>fetching EnsemblCompara-homologs for (GeneID=ENSG00000177692, targetOrg=Gasterosteus_aculeatus)...ok
>chaining blast-hits together...done
>calculating gene order alignments...Argument "contig_7639" isn't numeric in int at /homes/bierdepot/joe/MyLocalSrcDir/perl/lib/perl5/5.8.8/SynBlast/MySyntenyAln.pm line 465.
done
>chaining blast-hits together...done
>calculating gene order alignments...Argument "contig_1187" isn't numeric in int at /homes/bierdepot/joe/MyLocalSrcDir/perl/lib/perl5/5.8.8/SynBlast/MySyntenyAln.pm line 465.
done
>chaining blast-hits together...done
>calculating gene order alignments...Argument "contig_5037" isn't numeric in int at /homes/bierdepot/joe/MyLocalSrcDir/perl/lib/perl5/5.8.8/SynBlast/MySyntenyAln.pm line 465.
done
>chaining blast-hits together...done
>calculating gene order alignments...Argument "contig_4002" isn't numeric in int at /homes/bierdepot/joe/MyLocalSrcDir/perl/lib/perl5/5.8.8/SynBlast/MySyntenyAln.pm line 465.
done
>chaining blast-hits together...done
>calculating gene order alignments...Argument "contig_7638" isn't numeric in int at /homes/bierdepot/joe/MyLocalSrcDir/perl/lib/perl5/5.8.8/SynBlast/MySyntenyAln.pm line 465.
done
>chaining blast-hits together...done
>calculating gene order alignments...Argument "contig_8770" isn't numeric in int at /homes/bierdepot/joe/MyLocalSrcDir/perl/lib/perl5/5.8.8/SynBlast/MySyntenyAln.pm line 465.
done
>chaining blast-hits together...done
>calculating gene order alignments...Argument "contig_653" isn't numeric in int at /homes/bierdepot/joe/MyLocalSrcDir/perl/lib/perl5/5.8.8/SynBlast/MySyntenyAln.pm line 465.
done
>chaining blast-hits together...done
>calculating gene order alignments...Argument "contig_5776" isn't numeric in int at /homes/bierdepot/joe/MyLocalSrcDir/perl/lib/perl5/5.8.8/SynBlast/MySyntenyAln.pm line 465.
done
>chaining blast-hits together...done
>calculating gene order alignments...Argument "contig_647" isn't numeric in int at /homes/bierdepot/joe/MyLocalSrcDir/perl/lib/perl5/5.8.8/SynBlast/MySyntenyAln.pm line 465.
done
>chaining blast-hits together...done
>calculating gene order alignments...Argument "contig_648" isn't numeric in int at /homes/bierdepot/joe/MyLocalSrcDir/perl/lib/perl5/5.8.8/SynBlast/MySyntenyAln.pm line 465.
done
>fetching global-besthit data for all queries against Homo_sapiens...done
>fetching EnsemblCompara-homologs for (GeneID=ENSG00000186842, targetOrg=Homo_sapiens)...none
>fetching EnsemblCompara-homologs for (GeneID=ENSG00000166984, targetOrg=Homo_sapiens)...ok
>fetching EnsemblCompara-homologs for (GeneID=ENSG00000159079, targetOrg=Homo_sapiens)...none
>fetching EnsemblCompara-homologs for (GeneID=ENSG00000159082, targetOrg=Homo_sapiens)...ok
>fetching EnsemblCompara-homologs for (GeneID=ENSG00000159086, targetOrg=Homo_sapiens)...ok
>fetching EnsemblCompara-homologs for (GeneID=ENSG00000205929, targetOrg=Homo_sapiens)...none
>fetching EnsemblCompara-homologs for (GeneID=ENSG00000205927, targetOrg=Homo_sapiens)...ok
>fetching EnsemblCompara-homologs for (GeneID=ENSG00000184221, targetOrg=Homo_sapiens)...ok
>fetching EnsemblCompara-homologs for (GeneID=ENSG00000205921, targetOrg=Homo_sapiens)...none
>fetching EnsemblCompara-homologs for (GeneID=ENSG00000159110, targetOrg=Homo_sapiens)...ok
>fetching EnsemblCompara-homologs for (GeneID=ENSG00000159113, targetOrg=Homo_sapiens)...ok
>fetching EnsemblCompara-homologs for (GeneID=ENSG00000142166, targetOrg=Homo_sapiens)...ok
>fetching EnsemblCompara-homologs for (GeneID=ENSG00000159128, targetOrg=Homo_sapiens)...ok
>fetching EnsemblCompara-homologs for (GeneID=ENSG00000142188, targetOrg=Homo_sapiens)...ok
>fetching EnsemblCompara-homologs for (GeneID=ENSG00000177692, targetOrg=Homo_sapiens)...none
>chaining blast-hits together...done
>calculating gene order alignments...done
>chaining blast-hits together...done
>calculating gene order alignments...done
>chaining blast-hits together...done
>calculating gene order alignments...done
>chaining blast-hits together...done
>calculating gene order alignments...done
>chaining blast-hits together...done
>calculating gene order alignments...done
>chaining blast-hits together...done
>calculating gene order alignments...done
>chaining blast-hits together...done
>calculating gene order alignments...done
>chaining blast-hits together...done
>calculating gene order alignments...done
>chaining blast-hits together...done
>calculating gene order alignments...done
>chaining blast-hits together...done
>calculating gene order alignments...done
Argument "contig_7639" isn't numeric in int at /homes/bierdepot/joe/MyLocalSrcDir/perl/bin/doSyntenyAlignment.pl line 1032.
Argument "contig_5037" isn't numeric in int at /homes/bierdepot/joe/MyLocalSrcDir/perl/bin/doSyntenyAlignment.pl line 1032.
Argument "contig_4002" isn't numeric in int at /homes/bierdepot/joe/MyLocalSrcDir/perl/bin/doSyntenyAlignment.pl line 1032.
>"ENSG00000205927-homologs/comparaHits/Homo_sapiens.ENSP00000371794.fa" did already exist, skip downloading...
>"ENSG00000205927-homologs/comparaHits/Homo_sapiens.ENSP00000371794.fa" did already exist, skip downloading...
>"ENSG00000205927-homologs/comparaHits/Homo_sapiens.ENSP00000371794.fa" did already exist, skip downloading...